TB-Profiler result

Run: SRR11823427
Summary

Run ID: SRR11823427

Sample name:

Date: 2024-03-26T16:47:07.878196

Number of reads: 1361902

Percentage reads mapped: 99.76

Median coverage: 51.5

Strain: lineage4.9

Spoligotype:

Drug-resistance: Sensitive

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Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
lineage4 Euro-American None 1.0
lineage4.9 Euro-American (H37Rv-like) None 1.0
Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations WHO confidence Comment
rifampicin
isoniazid
ethambutol
pyrazinamide
streptomycin
fluoroquinolones
moxifloxacin
ofloxacin
levofloxacin
ciprofloxacin
aminoglycosides
amikacin
capreomycin
kanamycin
cycloserine
ethionamide
clofazimine
para-aminosalicylic_acid
delamanid
bedaquiline
linezolid
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs Confidence Comment
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs Confidence
Rv0010c 13632 c.-74A>G upstream_gene_variant 0.27 isoniazid
Rv0010c 13635 c.-77C>T upstream_gene_variant 0.28 isoniazid
Rv0010c 13824 c.-266A>T upstream_gene_variant 0.3 isoniazid
Rv0010c 13829 c.-271T>A upstream_gene_variant 0.35 isoniazid
Rv0010c 13834 c.-276A>T upstream_gene_variant 0.32 isoniazid
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 streptomycin
kanamycin
capreomycin
amikacin
rrl 1474425 n.768A>G non_coding_transcript_exon_variant 0.33 capreomycin
linezolid
rrl 1474428 n.771C>T non_coding_transcript_exon_variant 0.35 capreomycin
linezolid
rpsA 1833641 p.Asn34Asp missense_variant 0.2 pyrazinamide
rpsA 1833648 p.Gly36Val missense_variant 0.25 pyrazinamide
rpsA 1833651 p.Asp37Ala missense_variant 0.25 pyrazinamide
rpsA 1833658 c.117C>T synonymous_variant 0.26 pyrazinamide